Slit2 slit guidance ligand 2 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Slit2provided by RGD
Official Full Name: slit guidance ligand 2provided by RGD
Primary source: RGD:69310
See related: Ensembl:ENSRNOG00000003840 AllianceGenome:RGD:69310
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Summary: Enables heparan sulfate proteoglycan binding activity. Involved in several processes, including central nervous system development; negative regulation of inflammatory response; and negative regulation of monocyte chemotaxis. Located in plasma membrane. Biomarker of anti-basement membrane glomerulonephritis. Orthologous to human SLIT2 (slit guidance ligand 2). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Lung (RPKM 163.7), Kidney (RPKM 132.8) and 5 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 14q11

Exon count:: 39

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	14	NC_086032.1 (66829661..67168517, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	14	NC_051349.1 (62616337..62955934, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	14	NC_005113.4 (66831848..67171491, complement)

Chromosome 14 - NC_086032.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

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Expression

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See details

Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
BioProject: PRJNA238328
Publication: PMID 24510058
Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Recombinant Slit2 attenuates tracheal fibroblast activation in benign central airway obstruction by inhibiting the TGF-beta1/Smad3 signaling pathway.
Title: Recombinant Slit2 attenuates tracheal fibroblast activation in benign central airway obstruction by inhibiting the TGF-β1/Smad3 signaling pathway.
Expression of Slit and Robo during remodeling of corticospinal tract in cervical spinal cord in middle cerebral artery occlusion rats.
Title: Expression of Slit and Robo during remodeling of corticospinal tract in cervical spinal cord in middle cerebral artery occlusion rats.
Inhibition of miR-200b-3p alleviates hypoxia-ischemic brain damage via targeting Slit2 in neonatal rats.
Title: Inhibition of miR-200b-3p alleviates hypoxia-ischemic brain damage via targeting Slit2 in neonatal rats.
This study showed that Slit2 was decreased in surviving neurons in the spinal cord following spinal cord injury. And inhibition of Slit2 led to upregulation of the expression of Robo1 and RhoA.
Title: Slit2/Robo1 promotes synaptogenesis and functional recovery of spinal cord injury.
The alteration of Slit2 and Robo1 expression in the retinas of diabetic rats and patients with proliferative diabetic retinopathy suggests a role for the Slit-Robo signal in the various stages diabetic retinopathy.
Title: The expression of the Slit-Robo signal in the retina of diabetic rats and the vitreous or fibrovascular retinal membranes of patients with proliferative diabetic retinopathy.
These results indicated that Slit2 suppresses TNFalphainduced vascular endothelial cell proliferation and migration in vitro by inhibiting the VEGFNotch signaling pathway.
Title: Slit2 suppresses endothelial cell proliferation and migration by inhibiting the VEGF-Notch signaling pathway.
data revealed a selective and sustained induction of Slit2 and Robo in astrocytes localized throughout the astroglial scar after ischemic stroke, suggesting that Slit2/Robo signaling participates in glial scar formation and brain remodeling following ischemic injury.
Title: Increased Expression of Slit2 and its Robo Receptors During Astroglial Scar Formation After Transient Focal Cerebral Ischemia in Rats.
Results suggest that Slit2/Robo signaling may be involved in regulating the astroglial reaction via autocrine or paracrine mechanisms in post-ischemic processes.
Title: Increased expression of Slit2 and its receptors Robo1 and Robo4 in reactive astrocytes of the rat hippocampus after transient forebrain ischemia.
Mutations of the SLIT2-ROBO2 pathway genes SLIT2 and SRGAP1 confer risk for congenital anomalies of the kidney and urinary tract
Title: Mutations of the SLIT2-ROBO2 pathway genes SLIT2 and SRGAP1 confer risk for congenital anomalies of the kidney and urinary tract.
Slit-2 repels the migration of Schwann cells through RhoA-myosin signaling pathways in a Ca2+-dependent manner.
Title: Repulsive migration of Schwann cells induced by Slit-2 through Ca2+-dependent RhoA-myosin signaling.

Submit: New GeneRIF Correction See all GeneRIFs (21)

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

AU026992 (e-PCR)
- UniSTS:113735

Slit2 (e-PCR), detects polymorphism
- UniSTS:526943

RH134686 (e-PCR)
- UniSTS:217965

BE116869 (e-PCR)
- UniSTS:248557

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables GTPase inhibitor activity	IEA Inferred from Electronic Annotation more info
enables GTPase inhibitor activity	ISO Inferred from Sequence Orthology more info
enables Roundabout binding	IEA Inferred from Electronic Annotation more info
enables Roundabout binding	ISO Inferred from Sequence Orthology more info
enables calcium ion binding	IEA Inferred from Electronic Annotation more info
enables chemorepellent activity	ISO Inferred from Sequence Orthology more info
enables follicle-stimulating hormone receptor activity	IEA Inferred from Electronic Annotation more info
enables heparan sulfate proteoglycan binding	IDA Inferred from Direct Assay more info	PubMed
enables heparin binding	IEA Inferred from Electronic Annotation more info
enables heparin binding	ISO Inferred from Sequence Orthology more info
enables identical protein binding	ISO Inferred from Sequence Orthology more info
enables laminin-1 binding	IEA Inferred from Electronic Annotation more info
enables laminin-1 binding	ISO Inferred from Sequence Orthology more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables protein homodimerization activity	IEA Inferred from Electronic Annotation more info
enables protein homodimerization activity	ISO Inferred from Sequence Orthology more info
enables proteoglycan binding	IEA Inferred from Electronic Annotation more info
enables proteoglycan binding	ISO Inferred from Sequence Orthology more info
enables signaling receptor binding	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
involved_in Roundabout signaling pathway	IEA Inferred from Electronic Annotation more info
involved_in Roundabout signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in aortic valve morphogenesis	ISO Inferred from Sequence Orthology more info
involved_in apoptotic process involved in luteolysis	IEA Inferred from Electronic Annotation more info
involved_in apoptotic process involved in luteolysis	ISO Inferred from Sequence Orthology more info
involved_in axon extension involved in axon guidance	IEA Inferred from Electronic Annotation more info
involved_in axon extension involved in axon guidance	ISO Inferred from Sequence Orthology more info
involved_in axon guidance	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within axon guidance	ISO Inferred from Sequence Orthology more info
involved_in axon guidance	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within axonogenesis	ISO Inferred from Sequence Orthology more info
involved_in branching morphogenesis of an epithelial tube	IEA Inferred from Electronic Annotation more info
involved_in branching morphogenesis of an epithelial tube	ISO Inferred from Sequence Orthology more info
involved_in cell differentiation	IEA Inferred from Electronic Annotation more info
involved_in cell migration involved in sprouting angiogenesis	IEA Inferred from Electronic Annotation more info
involved_in cell migration involved in sprouting angiogenesis	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within cell-cell adhesion	ISO Inferred from Sequence Orthology more info
involved_in cellular response to heparin	IEA Inferred from Electronic Annotation more info
involved_in cellular response to heparin	ISO Inferred from Sequence Orthology more info
involved_in cellular response to hormone stimulus	IEA Inferred from Electronic Annotation more info
involved_in cellular response to hormone stimulus	ISO Inferred from Sequence Orthology more info
involved_in cellular response to hypoxia	IEP Inferred from Expression Pattern more info	PubMed
involved_in cellular response to platelet-derived growth factor stimulus	IEP Inferred from Expression Pattern more info	PubMed
NOT involved_in chemorepulsion involved in embryonic olfactory bulb interneuron precursor migration	ISO Inferred from Sequence Orthology more info
involved_in chemorepulsion involved in postnatal olfactory bulb interneuron migration	IEA Inferred from Electronic Annotation more info
involved_in chemorepulsion involved in postnatal olfactory bulb interneuron migration	ISO Inferred from Sequence Orthology more info
involved_in corticospinal neuron axon guidance through spinal cord	IEA Inferred from Electronic Annotation more info
involved_in corticospinal neuron axon guidance through spinal cord	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within dorsal/ventral axon guidance	ISO Inferred from Sequence Orthology more info
involved_in follicle-stimulating hormone signaling pathway	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within in utero embryonic development	ISO Inferred from Sequence Orthology more info
involved_in induction of negative chemotaxis	IEA Inferred from Electronic Annotation more info
involved_in induction of negative chemotaxis	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within kidney development	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within mammary duct terminal end bud growth	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within mammary gland duct morphogenesis	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within metanephros development	ISO Inferred from Sequence Orthology more info
involved_in motor neuron axon guidance	IEA Inferred from Electronic Annotation more info
involved_in motor neuron axon guidance	ISO Inferred from Sequence Orthology more info
involved_in negative chemotaxis	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within negative chemotaxis	ISO Inferred from Sequence Orthology more info
involved_in negative chemotaxis	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of actin filament polymerization	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of actin filament polymerization	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within negative regulation of axon extension	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of cell growth	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of cell growth	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of cell migration	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within negative regulation of cell population proliferation	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of cellular response to growth factor stimulus	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of cellular response to growth factor stimulus	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of chemokine-mediated signaling pathway	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of chemokine-mediated signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of endothelial cell migration	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of endothelial cell migration	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within negative regulation of gene expression	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of lamellipodium assembly	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of lamellipodium assembly	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of leukocyte chemotaxis	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of monocyte chemotaxis	IDA Inferred from Direct Assay more info	PubMed
involved_in negative regulation of mononuclear cell migration	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of mononuclear cell migration	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of neutrophil chemotaxis	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of neutrophil chemotaxis	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of protein phosphorylation	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of protein phosphorylation	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of retinal ganglion cell axon guidance	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of retinal ganglion cell axon guidance	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of small GTPase mediated signal transduction	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of small GTPase mediated signal transduction	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of smooth muscle cell chemotaxis	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of smooth muscle cell chemotaxis	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of smooth muscle cell migration	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of vascular permeability	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of vascular permeability	ISO Inferred from Sequence Orthology more info
involved_in nervous system development	IEA Inferred from Electronic Annotation more info
involved_in neuron projection extension	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within neuron projection morphogenesis	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within olfactory bulb development	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of apoptotic process	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of apoptotic process	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of synapse assembly	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in pulmonary valve morphogenesis	ISO Inferred from Sequence Orthology more info
involved_in response to cortisol	IEA Inferred from Electronic Annotation more info
involved_in response to cortisol	ISO Inferred from Sequence Orthology more info
involved_in response to nutrient levels	IEP Inferred from Expression Pattern more info	PubMed
involved_in retinal ganglion cell axon guidance	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within retinal ganglion cell axon guidance	ISO Inferred from Sequence Orthology more info
involved_in retinal ganglion cell axon guidance	ISO Inferred from Sequence Orthology more info
involved_in spinal cord development	IEP Inferred from Expression Pattern more info	PubMed
involved_in synapse maturation	IDA Inferred from Direct Assay more info	PubMed
involved_in synapse maturation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in synapse maturation	NAS Non-traceable Author Statement more info	PubMed
acts_upstream_of_or_within telencephalon cell migration	ISO Inferred from Sequence Orthology more info
involved_in ureteric bud development	IEA Inferred from Electronic Annotation more info
involved_in ureteric bud development	ISO Inferred from Sequence Orthology more info
involved_in ventricular septum morphogenesis	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
located_in axon	IDA Inferred from Direct Assay more info	PubMed
located_in cell body	IDA Inferred from Direct Assay more info	PubMed
located_in cell projection	IDA Inferred from Direct Assay more info	PubMed
located_in cell surface	ISO Inferred from Sequence Orthology more info
located_in cytoplasm	IEA Inferred from Electronic Annotation more info
located_in cytoplasm	ISO Inferred from Sequence Orthology more info
located_in dendrite	IDA Inferred from Direct Assay more info	PubMed
located_in extracellular region	IEA Inferred from Electronic Annotation more info
located_in extracellular space	IEA Inferred from Electronic Annotation more info
located_in extracellular space	ISO Inferred from Sequence Orthology more info
located_in membrane	IEA Inferred from Electronic Annotation more info
located_in neuronal cell body	IDA Inferred from Direct Assay more info	PubMed
is_active_in perisynaptic extracellular matrix	EXP Inferred from Experiment more info	PubMed
is_active_in perisynaptic extracellular matrix	IDA Inferred from Direct Assay more info	PubMed
is_active_in perisynaptic extracellular matrix	IMP Inferred from Mutant Phenotype more info	PubMed
is_active_in perisynaptic extracellular matrix	NAS Non-traceable Author Statement more info	PubMed

General protein information

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Preferred Names: slit homolog 2 protein

Names: slit-2

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

NM_022632.2 → NP_072154.2 slit homolog 2 protein precursor

Status: VALIDATED

Source sequence(s)

JAXUCZ010000014

UniProtKB/TrEMBL

A0A0G2KA49, F1MA79

Related

ENSRNOP00000005477.5, ENSRNOT00000005477.8

Conserved Domains (10) summary

smart00013
Location:723 → 754

LRRNT; Leucine rich repeat N-terminal domain

smart00082
Location:855 → 904

LRRCT; Leucine rich repeat C-terminal domain

smart00282
Location:1179 → 1312

LamG; Laminin G domain

cd00054
Location:1072 → 1108

EGF_CA; Calcium-binding EGF-like domain, present in a large number of membrane-bound and extracellular (mostly animal) proteins. Many of these proteins require calcium for their biological function and calcium-binding sites have been found to be located at the ...

cd00116
Location:43 → 214

LRR_RI; Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond ...

sd00031
Location:847 → 859

LRR_1; leucine-rich repeat [structural motif]

sd00033
Location:38 → 56

LRR_RI; leucine-rich repeat [structural motif]

pfam01462
Location:27 → 54

LRRNT; Leucine rich repeat N-terminal domain

pfam12799
Location:328 → 368

LRR_4; Leucine Rich repeats (2 copies)

pfam13855
Location:773 → 833

LRR_8; Leucine rich repeat

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCr8

Genomic

NC_086032.1 Reference GRCr8

Range

66829661..67168517 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_017599277.3 → XP_017454766.1 slit homolog 2 protein isoform X3

UniProtKB/TrEMBL

A0A0G2KA49

Related

ENSRNOP00000089142.1
XM_039092141.2 → XP_038948069.1 slit homolog 2 protein isoform X1

UniProtKB/TrEMBL

A0A8I6AMD5

Conserved Domains (10) summary

TIGR00864
Location:832 → 1013

PCC; polycystin cation channel protein

smart00013
Location:27 → 58

LRRNT; Leucine rich repeat N-terminal domain

smart00282
Location:1192 → 1325

LamG; Laminin G domain

cd00054
Location:1085 → 1121

EGF_CA; Calcium-binding EGF-like domain, present in a large number of membrane-bound and extracellular (mostly animal) proteins. Many of these proteins require calcium for their biological function and calcium-binding sites have been found to be located at the ...

sd00031
Location:851 → 863

LRR_1; leucine-rich repeat [structural motif]

sd00033
Location:38 → 56

LRR_RI; leucine-rich repeat [structural motif]

NF033189
Location:557 → 854

internalin_A; class 1 internalin InlA

pfam00008
Location:1002 → 1029

EGF; EGF-like domain

pfam12661
Location:1139 → 1160

hEGF; Human growth factor-like EGF

pfam13855
Location:778 → 837

LRR_8; Leucine rich repeat
XM_017599278.3 → XP_017454767.1 slit homolog 2 protein isoform X4

UniProtKB/TrEMBL

A0A0G2KA49
XM_063273311.1 → XP_063129381.1 slit homolog 2 protein isoform X2